Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 26 of 279
Found at i:8449378 original size:43 final size:41
Alignment explanation
Indices: 8449274--8449380 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
8449264 CTATACTTTA
* * *
8449274 ACCTGTTACCCTACTGCTTAGGGGGTTAAGACGCATCTTCG
1 ACCTGTTACCCTACTGCTTAGGGAGATAAGACGAATCTTCG
* * * *
8449315 ATCTGCT-CCACTATTGCTTAGGGAGATAAGATCCGTAAT-TTTG
1 ACCTGTTACC-CTACTGCTTAGGGAGATAAGA--CG-AATCTTCG
8449358 ACCTGTTACCCTACTGCTTAGGG
1 ACCTGTTACCCTACTGCTTAGGG
8449381 GATTAAGGCG
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.04
41 23 0.45
43 22 0.43
44 4 0.08
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (41 bp):
ACCTGTTACCCTACTGCTTAGGGAGATAAGACGAATCTTCG
Found at i:8450324 original size:7 final size:7
Alignment explanation
Indices: 8450312--8450353 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
8450302 GGCCTCTCTA
8450312 TTTTTTC
1 TTTTTTC
8450319 TTTTTTC
1 TTTTTTC
8450326 TTTTTTC
1 TTTTTTC
8450333 TCTTTTT-
1 T-TTTTTC
8450340 TCTTTTTC
1 T-TTTTTC
8450348 TTTTTT
1 TTTTTT
8450354 TATCTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:8450336 original size:16 final size:16
Alignment explanation
Indices: 8450312--8450362 Score: 70
Period size: 15 Copynumber: 3.2 Consensus size: 16
8450302 GGCCTCTCTA
8450312 TTTTT-TCTTTTTTCT
1 TTTTTCTCTTTTTTCT
8450327 TTTTTCTCTTTTTTC-
1 TTTTTCTCTTTTTTCT
*
8450342 TTTTTCTTTTTTTATCT
1 TTTTTCTCTTTTT-TCT
8450359 TTTT
1 TTTT
8450363 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 17 0.53
16 11 0.34
17 4 0.12
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTCTTTTTTCT
Found at i:8450338 original size:22 final size:21
Alignment explanation
Indices: 8450313--8450386 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 21
8450303 GCCTCTCTAT
8450313 TTTTTCTTTTTTCTTTTTTCTC
1 TTTTT-TTTTTTCTTTTTTCTC
*
8450335 TTTTTTCTTTTTCTTTTTTTATC
1 TTTTTT-TTTTTC-TTTTTTCTC
*
8450358 TTTTTATTTTAT-TTTTTTC-C
1 TTTTT-TTTTTTCTTTTTTCTC
8450378 TTTTTTTTT
1 TTTTTTTTT
8450387 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.09
20 6 0.13
21 7 0.15
22 11 0.24
23 17 0.37
24 1 0.02
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTTTCTTTTTTCTC
Found at i:8450340 original size:23 final size:23
Alignment explanation
Indices: 8450312--8450383 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 23
8450302 GGCCTCTCTA
8450312 TTTTTTCTTTTTTCTTTTTTCTC
1 TTTTTTCTTTTTTCTTTTTTCTC
*
8450335 TTTTTTC-TTTTTCTTTTTT-TA
1 TTTTTTCTTTTTTCTTTTTTCTC
* *
8450356 TCTTTTTATTTTAT-TTTTTTC-C
1 T-TTTTTCTTTTTTCTTTTTTCTC
8450378 TTTTTT
1 TTTTTT
8450384 TTTGAAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 7 0.17
22 24 0.57
23 11 0.26
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTTCTTTTTTCTTTTTTCTC
Found at i:8450367 original size:16 final size:15
Alignment explanation
Indices: 8450319--8450385 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 15
8450309 CTATTTTTTC
8450319 TTTTTTCTTTTT-TCT
1 TTTTTTCTTTTTAT-T
*
8450334 CTTTTTTCTTTTTCTT
1 -TTTTTTCTTTTTATT
8450350 TTTTTATCTTTTTATT
1 TTTTT-TCTTTTTATT
* **
8450366 TTATTT-TTTTCCTT
1 TTTTTTCTTTTTATT
8450380 TTTTTT
1 TTTTTT
8450386 TGAAATAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 11 0.25
15 6 0.14
16 26 0.59
17 1 0.02
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTATT
Found at i:8450374 original size:20 final size:19
Alignment explanation
Indices: 8450337--8450386 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
8450327 TTTTTCTCTT
* *
8450337 TTTTCTTTTTCTTTTTTTATC
1 TTTT-TTTTTATTTTTTT-CC
8450358 TTTTTATTTTATTTTTTTCC
1 TTTTT-TTTTATTTTTTTCC
8450378 TTTTTTTTT
1 TTTTTTTTT
8450387 GAAATAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 7 0.27
21 15 0.58
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTATTTTTTTCC
Found at i:8455257 original size:17 final size:18
Alignment explanation
Indices: 8455204--8455329 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
8455194 AATCATATCT
*
8455204 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
8455223 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
8455241 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
8455258 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
8455276 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
8455293 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
8455312 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
8455330 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:8455262 original size:35 final size:35
Alignment explanation
Indices: 8455204--8455321 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
8455194 AATCATATCT
8455204 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
8455241 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
8455276 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
8455312 TCTAAGATTG
1 TCTAAGATTG
8455322 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:8455337 original size:17 final size:18
Alignment explanation
Indices: 8455204--8455326 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
8455194 AATCATATCT
* *
8455204 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
8455223 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
8455241 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
8455258 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
8455276 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
8455293 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
8455312 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
8455327 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:8456726 original size:6 final size:6
Alignment explanation
Indices: 8456715--8456800 Score: 91
Period size: 6 Copynumber: 13.3 Consensus size: 6
8456705 CTTAAACTAG
*
8456715 AAAAGA AAAAGA AAAAGGGA AAAGGA AAAAGGA AAAAGGA AAAAGGA AAAAGGA
1 AAAAGA AAAAGA AAAA--GA AAAAGA AAAA-GA AAAA-GA AAAA-GA AAAA-GA
* *
8456769 AAAAGA AAAAGA AAAAGA AAGAGA AAGAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
8456801 GTTTTGTGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
6 42 0.57
7 27 0.36
8 5 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:8456737 original size:7 final size:7
Alignment explanation
Indices: 8456715--8456785 Score: 105
Period size: 7 Copynumber: 10.7 Consensus size: 7
8456705 CTTAAACTAG
8456715 AAAA-GA
1 AAAAGGA
8456721 AAAA-GA
1 AAAAGGA
*
8456727 AAAAGGG
1 AAAAGGA
8456734 AAAAGGA
1 AAAAGGA
8456741 AAAAGGA
1 AAAAGGA
8456748 AAAAGGA
1 AAAAGGA
8456755 AAAAGGA
1 AAAAGGA
8456762 AAAAGGA
1 AAAAGGA
8456769 AAAA-GA
1 AAAAGGA
8456775 AAAA-GA
1 AAAAGGA
8456781 AAAAG
1 AAAAG
8456786 AAAGAGAAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
6 22 0.36
7 39 0.64
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:8456795 original size:16 final size:16
Alignment explanation
Indices: 8456716--8456801 Score: 52
Period size: 16 Copynumber: 5.0 Consensus size: 16
8456706 TTAAACTAGA
8456716 AAAGAAAAAGAAAAAGGG
1 AAAGAAAAAGAAAAA--G
8456734 AAAAGGAAAAAGGAAAAAG
1 -AAA-GAAAAA-GAAAAAG
8456753 ---GAAAAAGGAAAAAGG
1 AAAGAAAAA-GAAAAA-G
8456768 AAAAAGAAAAAGAAAAAG
1 --AAAGAAAAAGAAAAAG
* *
8456786 AAAGAGAAAGAGAAAG
1 AAAGAAAAAGAAAAAG
8456802 TTTTGTGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
14 13 0.23
15 1 0.02
16 14 0.25
18 1 0.02
19 10 0.18
20 12 0.21
21 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAG
Found at i:8456801 original size:12 final size:12
Alignment explanation
Indices: 8456715--8456801 Score: 59
Period size: 14 Copynumber: 6.8 Consensus size: 12
8456705 CTTAAACTAG
*
8456715 AAAAGAAAAAGA
1 AAAAGAAAGAGA
8456727 AAAAGGGAAA-AGGA
1 AAAA--GAAAGA-GA
*
8456741 AAAAGGAAAAAGGA
1 AAAA-GAAAGA-GA
*
8456755 AAAAGGAAAAAGGA
1 AAAA-GAAAGA-GA
*
8456769 AAAAGAAAAAGA
1 AAAAGAAAGAGA
8456781 AAAAGAAAGAGA
1 AAAAGAAAGAGA
*
8456793 AAGAGAAAG
1 AAAAGAAAG
8456802 TTTTGTGTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
12 25 0.36
13 12 0.17
14 32 0.46
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAGA
Found at i:8459933 original size:26 final size:26
Alignment explanation
Indices: 8459904--8459986 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
8459894 AATTTCATAA
8459904 TTAC-AATATGATATGACTTATCAAAT
1 TTACAAATATGATAT-ACTTATCAAAT
* * *
8459930 TTACAAAAAT-ATATAATT-TCAAAA
1 TTACAAATATGATATACTTATCAAAT
*
8459954 TTACAAATATGGTATAACTTATCAAAT
1 TTACAAATATGATAT-ACTTATCAAAT
8459981 TTACAA
1 TTACAA
8459987 CTATCAAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
24 14 0.30
25 6 0.13
26 11 0.24
27 15 0.33
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (26 bp):
TTACAAATATGATATACTTATCAAAT
Found at i:8459956 original size:50 final size:51
Alignment explanation
Indices: 8459882--8459986 Score: 158
Period size: 51 Copynumber: 2.1 Consensus size: 51
8459872 AATTTCTTCA
* * *
8459882 ACAAATATATACAATTTCATAATTAC-AATATGATATGACTTATCAAATTT
1 ACAAAAATATACAATTTCAAAATTACAAATATGATATAACTTATCAAATTT
* *
8459932 ACAAAAATATATAATTTCAAAATTACAAATATGGTATAACTTATCAAATTT
1 ACAAAAATATACAATTTCAAAATTACAAATATGATATAACTTATCAAATTT
8459983 ACAA
1 ACAA
8459987 CTATCAAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 23 0.47
51 26 0.53
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (51 bp):
ACAAAAATATACAATTTCAAAATTACAAATATGATATAACTTATCAAATTT
Found at i:8466200 original size:127 final size:126
Alignment explanation
Indices: 8466018--8466335 Score: 390
Period size: 126 Copynumber: 2.5 Consensus size: 126
8466008 TGATGCTTGG
* *
8466018 AAATTCGGGAAGTCGTGCCC-AACGTGCTGGGTTTCGATCTTCCGTTTGTCCAAATAATCAAATA
1 AAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCGATTTTCCGTTTGTCCAAATAATCAAATA
* * * *
8466082 TCCCTTTAAAATTTCGTCCACGTTTTCTAAATTTTAAAAGAAAGGCGATGTT-TACTATTTGA
66 TCCCTTTAAAATTTCGTCCACGTTTTCAAAACTTCAAAA-AAAGGCAATGTTCTA-TATTTGA
*
8466144 AAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCGATTTTCTGTTTGTCCAAATAATCAAATA
1 AAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCGATTTTCCGTTTGTCCAAATAATCAAATA
* * * * *
8466209 TCCTTTTAAAATTTCGTCTACGTTTTCAAAACTTCAAAACAAGGCAATGTTCTATGTTTGT
66 TCCCTTTAAAATTTCGTCCACGTTTTCAAAACTTCAAAAAAAGGCAATGTTCTATATTTGA
* ** * ** * * * *
8466270 AAATCCTAGAAATCGTGCCCTAACTTATTGGATTTCGATTTTTCGTTGGACC-AATAAATCAAAT
1 AAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCGATTTTCCGTTTGTCCAAAT-AATCAAAT
8466334 AT
65 AT
8466336 TCTTTTTGTA
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
125 3 0.02
126 85 0.51
127 78 0.47
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (126 bp):
AAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCGATTTTCCGTTTGTCCAAATAATCAAATA
TCCCTTTAAAATTTCGTCCACGTTTTCAAAACTTCAAAAAAAGGCAATGTTCTATATTTGA
Found at i:8482680 original size:3 final size:3
Alignment explanation
Indices: 8482672--8482696 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8482662 TGTATACATG
8482672 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8482697 TTACAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8483809 original size:6 final size:6
Alignment explanation
Indices: 8483800--8483866 Score: 93
Period size: 6 Copynumber: 11.5 Consensus size: 6
8483790 AAGTTAAAGG
* *
8483800 AAAAAT AAAAAT TAAAAT AAAGAT AAAAAT -AAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
8483847 AAAAAT -AAAAT AAAATT AAA
1 AAAAAT AAAAAT AAAAAT AAA
8483867 CATCATCTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
5 10 0.19
6 44 0.81
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:8483820 original size:23 final size:23
Alignment explanation
Indices: 8483794--8483866 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
8483784 ATTTAAAAGT
*
8483794 TAAAG-GAAAAATAAAAATTAAAA
1 TAAAGAGAAAAAT-AAAATAAAAA
*
8483817 TAAAGATAAAAATAAAATAAAAA
1 TAAAGAGAAAAATAAAATAAAAA
* * *
8483840 TAAAAATAAAAATAAAATAAAAT
1 TAAAGAGAAAAATAAAATAAAAA
8483863 TAAA
1 TAAA
8483867 CATCATCTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 39 0.87
24 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (23 bp):
TAAAGAGAAAAATAAAATAAAAA
Found at i:8483821 original size:29 final size:29
Alignment explanation
Indices: 8483801--8483862 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
8483791 AGTTAAAGGA
*
8483801 AAAATAAAAATTAAAATAAAGATAAAAAT
1 AAAATAAAAATAAAAATAAAGATAAAAAT
*
8483830 AAAATAAAAATAAAAATAAAAAT-AAAAT
1 AAAATAAAAATAAAAATAAAGATAAAAAT
8483858 AAAAT
1 AAAAT
8483863 TAAACATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (29 bp):
AAAATAAAAATAAAAATAAAGATAAAAAT
Found at i:8483832 original size:17 final size:16
Alignment explanation
Indices: 8483801--8483866 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 16
8483791 AGTTAAAGGA
8483801 AAAATAAAAATTAAAAT
1 AAAATAAAAA-TAAAAT
8483818 AAAGATAAAAATAAAAT
1 AAA-ATAAAAATAAAAT
8483835 AAAAATAAAAATAAAAAT
1 -AAAATAAAAAT-AAAAT
*
8483853 AAAATAAAATTAAA
1 AAAATAAAAATAAA
8483867 CATCATCTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
16 3 0.07
17 27 0.60
18 15 0.33
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:8489301 original size:647 final size:647
Alignment explanation
Indices: 8488067--8489360 Score: 2588
Period size: 647 Copynumber: 2.0 Consensus size: 647
8488057 TTTGATTCCC
8488067 TTGACCACCCGAGGAGAAATTTGGGTGGTTCCTCCAACCTGCATTATAAGTATTGCTATAAGAAT
1 TTGACCACCCGAGGAGAAATTTGGGTGGTTCCTCCAACCTGCATTATAAGTATTGCTATAAGAAT
8488132 TATTTTGAGATCGAGGATTATTACCCATGTAATTTAATTGCTCGTTCTCCATACTGTGGCAATAG
66 TATTTTGAGATCGAGGATTATTACCCATGTAATTTAATTGCTCGTTCTCCATACTGTGGCAATAG
8488197 GATTTATATTCTGAATTGCTTGATCCACCTCCACTGACTTCACAGTGCATTACTGGATGAACCTA
131 GATTTATATTCTGAATTGCTTGATCCACCTCCACTGACTTCACAGTGCATTACTGGATGAACCTA
8488262 CGAAGAACCAAGTAAACCATCAATCTTTTTATTTAGAAGTTCTACCTGGTTTGACAGCATAGTAA
196 CGAAGAACCAAGTAAACCATCAATCTTTTTATTTAGAAGTTCTACCTGGTTTGACAGCATAGTAA
8488327 CCAAATCGACGTTATAAACGCCTGCTGTTTTAGTTGGTTTAGTCCTCATGACTTGCCACTGATAG
261 CCAAATCGACGTTATAAACGCCTGCTGTTTTAGTTGGTTTAGTCCTCATGACTTGCCACTGATAG
8488392 TTATTCAGTGATATCTCTTCAATAAATTCGTAAGCCTCTTCAGGTGTTTTATTATTGATGATTCC
326 TTATTCAGTGATATCTCTTCAATAAATTCGTAAGCCTCTTCAGGTGTTTTATTATTGATGATTCC
8488457 CCCGGCTGTTGCATCAATCATCTGTCTTGTTGAGGGGTTCACACCATTGTAGAATGTTTGAAATT
391 CCCGGCTGTTGCATCAATCATCTGTCTTGTTGAGGGGTTCACACCATTGTAGAATGTTTGAAATT
8488522 ACAACCATAGAGGTAATCCATGGTGAGCACACCTTCACAGCAGGTCCTTATATCTCCCCCATGCA
456 ACAACCATAGAGGTAATCCATGGTGAGCACACCTTCACAGCAGGTCCTTATATCTCCCCCATGCA
8488587 TCGTAAAGAGTTTCTAAGTCTATCTGCACAAACTAAGAGATATAATTACGTAATTTAGCAGTTTT
521 TCGTAAAGAGTTTCTAAGTCTATCTGCACAAACTAAGAGATATAATTACGTAATTTAGCAGTTTT
8488652 AGCCGGCGGAAAATATTTTAATAAAAATTTTTGGGTCATTTGTTCCCAAGTAGTAATTGAAT
586 AGCCGGCGGAAAATATTTTAATAAAAATTTTTGGGTCATTTGTTCCCAAGTAGTAATTGAAT
8488714 TTGACCACCCGAGGAGAAATTTGGGTGGTTCCTCCAACCTGCATTATAAGTATTGCTATAAGAAT
1 TTGACCACCCGAGGAGAAATTTGGGTGGTTCCTCCAACCTGCATTATAAGTATTGCTATAAGAAT
8488779 TATTTTGAGATCGAGGATTATTACCCATGTAATTTAATTGCTCGTTCTCCATACTGTGGCAATAG
66 TATTTTGAGATCGAGGATTATTACCCATGTAATTTAATTGCTCGTTCTCCATACTGTGGCAATAG
8488844 GATTTATATTCTGAATTGCTTGATCCACCTCCACTGACTTCACAGTGCATTACTGGATGAACCTA
131 GATTTATATTCTGAATTGCTTGATCCACCTCCACTGACTTCACAGTGCATTACTGGATGAACCTA
8488909 CGAAGAACCAAGTAAACCATCAATCTTTTTATTTAGAAGTTCTACCTGGTTTGACAGCATAGTAA
196 CGAAGAACCAAGTAAACCATCAATCTTTTTATTTAGAAGTTCTACCTGGTTTGACAGCATAGTAA
8488974 CCAAATCGACGTTATAAACGCCTGCTGTTTTAGTTGGTTTAGTCCTCATGACTTGCCACTGATAG
261 CCAAATCGACGTTATAAACGCCTGCTGTTTTAGTTGGTTTAGTCCTCATGACTTGCCACTGATAG
8489039 TTATTCAGTGATATCTCTTCAATAAATTCGTAAGCCTCTTCAGGTGTTTTATTATTGATGATTCC
326 TTATTCAGTGATATCTCTTCAATAAATTCGTAAGCCTCTTCAGGTGTTTTATTATTGATGATTCC
8489104 CCCGGCTGTTGCATCAATCATCTGTCTTGTTGAGGGGTTCACACCATTGTAGAATGTTTGAAATT
391 CCCGGCTGTTGCATCAATCATCTGTCTTGTTGAGGGGTTCACACCATTGTAGAATGTTTGAAATT
8489169 ACAACCATAGAGGTAATCCATGGTGAGCACACCTTCACAGCAGGTCCTTATATCTCCCCCATGCA
456 ACAACCATAGAGGTAATCCATGGTGAGCACACCTTCACAGCAGGTCCTTATATCTCCCCCATGCA
8489234 TCGTAAAGAGTTTCTAAGTCTATCTGCACAAACTAAGAGATATAATTACGTAATTTAGCAGTTTT
521 TCGTAAAGAGTTTCTAAGTCTATCTGCACAAACTAAGAGATATAATTACGTAATTTAGCAGTTTT
8489299 AGCCGGCGGAAAATATTTTAATAAAAATTTTTGGGTCATTTGTTCCCAAGTAGTAATTGAAT
586 AGCCGGCGGAAAATATTTTAATAAAAATTTTTGGGTCATTTGTTCCCAAGTAGTAATTGAAT
8489361 CTCGTGGTAA
Statistics
Matches: 647, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
647 647 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (647 bp):
TTGACCACCCGAGGAGAAATTTGGGTGGTTCCTCCAACCTGCATTATAAGTATTGCTATAAGAAT
TATTTTGAGATCGAGGATTATTACCCATGTAATTTAATTGCTCGTTCTCCATACTGTGGCAATAG
GATTTATATTCTGAATTGCTTGATCCACCTCCACTGACTTCACAGTGCATTACTGGATGAACCTA
CGAAGAACCAAGTAAACCATCAATCTTTTTATTTAGAAGTTCTACCTGGTTTGACAGCATAGTAA
CCAAATCGACGTTATAAACGCCTGCTGTTTTAGTTGGTTTAGTCCTCATGACTTGCCACTGATAG
TTATTCAGTGATATCTCTTCAATAAATTCGTAAGCCTCTTCAGGTGTTTTATTATTGATGATTCC
CCCGGCTGTTGCATCAATCATCTGTCTTGTTGAGGGGTTCACACCATTGTAGAATGTTTGAAATT
ACAACCATAGAGGTAATCCATGGTGAGCACACCTTCACAGCAGGTCCTTATATCTCCCCCATGCA
TCGTAAAGAGTTTCTAAGTCTATCTGCACAAACTAAGAGATATAATTACGTAATTTAGCAGTTTT
AGCCGGCGGAAAATATTTTAATAAAAATTTTTGGGTCATTTGTTCCCAAGTAGTAATTGAAT
Found at i:8502902 original size:34 final size:34
Alignment explanation
Indices: 8502862--8502931 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
8502852 ATATAATAAA
8502862 GGTTATATTAATTTTTAAAGCGGCGCAATTAAGG
1 GGTTATATTAATTTTTAAAGCGGCGCAATTAAGG
8502896 GGTTATATTAATTTTTAAAGCGGCGCAATTAAGG
1 GGTTATATTAATTTTTAAAGCGGCGCAATTAAGG
8502930 GG
1 GG
8502932 GAAAAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (34 bp):
GGTTATATTAATTTTTAAAGCGGCGCAATTAAGG
Found at i:8504556 original size:127 final size:126
Alignment explanation
Indices: 8504343--8504664 Score: 405
Period size: 126 Copynumber: 2.5 Consensus size: 126
8504333 GCCGATTTTA
* * * *
8504343 TAAAACAAAGGTGATGTTTGATGCTTGGAAATTCGGGAAGTCGTGCCC-AACGTGCTGGGTTTCG
1 TAAAACAAAGGTGATGTTT-ATGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCG
* * * *
8504407 ATCTTCCGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCATGTTTTCTAAACTT
65 ATTTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
*
8504469 TAAAACAAAGGTGATGTTTACTGTTTGAAAATTCGGGAAATCATGCCCTAATGTGCTGGGTTTCG
1 TAAAACAAAGGTGATGTTTA-TGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCG
* **
8504534 ATTTTCTATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTTTACGTTTTCAAAACTT
65 ATTTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
* * ** * * * ** *
8504596 CAAAAC-AATGCAATGTTCTATGTTTGTAAATCCGAGAAATCATGCCCTAACGTATTGGATTTCG
1 TAAAACAAAGGTGATGTT-TATGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCG
8504660 ATTTT
65 ATTTT
8504665 GCGTTGGACC
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
125 1 0.01
126 92 0.54
127 77 0.45
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (126 bp):
TAAAACAAAGGTGATGTTTATGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCGA
TTTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
Found at i:8514978 original size:22 final size:22
Alignment explanation
Indices: 8514948--8514994 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
8514938 TATCAAATGT
*
8514948 TATGGATAAAGTATACATATAA
1 TATGAATAAAGTATACATATAA
8514970 TATGAATAAAGTATACATATAA
1 TATGAATAAAGTATACATATAA
8514992 TAT
1 TAT
8514995 TTAATCAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (22 bp):
TATGAATAAAGTATACATATAA
Found at i:8525235 original size:18 final size:20
Alignment explanation
Indices: 8525203--8525243 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
8525193 TATTAAATCT
*
8525203 TTTAGAACAATTTTAA-ACA
1 TTTAGAACAACTTTAATACA
8525222 TTTA-AACAACTTTAATACA
1 TTTAGAACAACTTTAATACA
8525241 TTT
1 TTT
8525244 TTAAAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAGAACAACTTTAATACA
Found at i:8533446 original size:7 final size:7
Alignment explanation
Indices: 8533434--8533459 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8533424 ACAATTATAA
8533434 TAAATAT
1 TAAATAT
8533441 TAAATAT
1 TAAATAT
8533448 TAAATAT
1 TAAATAT
8533455 TAAAT
1 TAAAT
8533460 TTTATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAATAT
Found at i:8533473 original size:19 final size:19
Alignment explanation
Indices: 8533449--8533507 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
8533439 ATTAAATATT
8533449 AAATATTAAATTTTATAAA
1 AAATATTAAATTTTATAAA
8533468 AAATATT-AATTTTACTAAA
1 AAATATTAAATTTTA-TAAA
* *
8533487 AATTA-AAAATTTTTATAAA
1 AAATATTAAA-TTTTATAAA
8533506 AA
1 AA
8533508 TCATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 23 0.66
20 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATTAAATTTTATAAA
Found at i:8533515 original size:20 final size:20
Alignment explanation
Indices: 8533477--8533515 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8533467 AAAATATTAA
*
8533477 TTTTACTAAAAATTAAAAAT
1 TTTTACTAAAAATCAAAAAT
8533497 TTTTA-TAAAAATCATAAAA
1 TTTTACTAAAAATCA-AAAA
8533516 AAATTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTACTAAAAATCAAAAAT
Found at i:8533736 original size:10 final size:10
Alignment explanation
Indices: 8533723--8533811 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
8533713 CTTTATAAAA
8533723 TTTTATAATT
1 TTTTATAATT
8533733 TTTTAT--TT
1 TTTTATAATT
* *
8533741 TTCTAT-ATA
1 TTTTATAATT
8533750 TTTTAT-ATT
1 TTTTATAATT
* *
8533759 TTTT-TACTA
1 TTTTATAATT
**
8533768 TTTTATAAAA
1 TTTTATAATT
*
8533778 TTTTACAATT
1 TTTTATAATT
8533788 CTTTTATATATT
1 -TTTTATA-ATT
*
8533800 TTTTCTAATT
1 TTTTATAATT
8533810 TT
1 TT
8533812 AATAAGTTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 8 0.13
9 17 0.28
10 21 0.34
11 12 0.20
12 3 0.05
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8533769 original size:18 final size:19
Alignment explanation
Indices: 8533726--8533774 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
8533716 TATAAAATTT
*
8533726 TATA-ATTTTTTATTTTTC
1 TATATATTTTATATTTTTC
8533744 TATATATTTTATATTTTT-
1 TATATATTTTATATTTTTC
8533762 T-TACTATTTTATA
1 TATA-TATTTTATA
8533775 AAATTTTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 14 0.50
19 12 0.43
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATATTTTATATTTTTC
Found at i:8533774 original size:27 final size:27
Alignment explanation
Indices: 8533722--8533796 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
8533712 ACTTTATAAA
*
8533722 ATTTTATAATTTTTTATTTTTCTATAT
1 ATTTTATAATTTTTTATATTTCTATAT
* *
8533749 ATTTTATATTTTTTTACTATTT-TATAAA
1 ATTTTATAATTTTTTA-TATTTCTAT-AT
*
8533777 ATTTTACAATTCTTTTATAT
1 ATTTTATAATT-TTTTATAT
8533797 ATTTTTTCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 18 0.45
28 17 0.43
29 5 0.12
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTATAATTTTTTATATTTCTATAT
Found at i:8533775 original size:55 final size:59
Alignment explanation
Indices: 8533676--8533794 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 59
8533666 TTTTACAAAA
* *
8533676 TTTATTTTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATAATT-T
1 TTTATTTTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTCT
* * * *
8533734 TTTATTTTTCTATATA-TTT-TAT-ATTTTTTTACTATTTTATAAAATTTTACAATTCT
1 TTTATTTTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTCT
8533790 TTTAT
1 TTTAT
8533795 ATATTTTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
55 28 0.52
56 9 0.17
57 3 0.06
58 14 0.26
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.63
Consensus pattern (59 bp):
TTTATTTTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTCT
Found at i:8538327 original size:22 final size:23
Alignment explanation
Indices: 8538288--8538330 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8538278 AATCCTTCCC
8538288 CTCTCCCTCCTCTCTCTTTTTCT
1 CTCTCCCTCCTCTCTCTTTTTCT
* *
8538311 CTCTTCCT-CTCTTTCTTTTT
1 CTCTCCCTCCTCTCTCTTTTT
8538331 TTTTCTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (23 bp):
CTCTCCCTCCTCTCTCTTTTTCT
Found at i:8541668 original size:25 final size:24
Alignment explanation
Indices: 8541621--8541668 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
8541611 AATTTATGAA
* * *
8541621 ACTCTTAAAATGTATAAATCTTTT
1 ACTCTAAAAATGCATAAAACTTTT
8541645 ACTCTAAAATATGCATAAAACTTT
1 ACTCTAAAA-ATGCATAAAACTTT
8541669 GGATAAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (24 bp):
ACTCTAAAAATGCATAAAACTTTT
Found at i:8543784 original size:25 final size:26
Alignment explanation
Indices: 8543756--8543810 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
8543746 AATTTAAATT
*
8543756 ATTTAAAAAATAA-TTTATTTTGATA
1 ATTTAAAAAATAAGTTTATTTTGAAA
* *
8543781 ATTTACAAGATAAGTTTATTTTGAAA
1 ATTTAAAAAATAAGTTTATTTTGAAA
8543807 ATTT
1 ATTT
8543811 TATCATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (26 bp):
ATTTAAAAAATAAGTTTATTTTGAAA
Found at i:8547655 original size:21 final size:22
Alignment explanation
Indices: 8547629--8547685 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
8547619 TTAATGAATG
*
8547629 TAAGGGTTCACATA-AATATAT
1 TAAGGGTTCACATAGAATATAC
* * * *
8547650 TAAGGGATCACCTAGCATTTAC
1 TAAGGGTTCACATAGAATATAC
8547672 TAAGGGTTCACATA
1 TAAGGGTTCACATA
8547686 CAGGGGTTCG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (22 bp):
TAAGGGTTCACATAGAATATAC
Found at i:8551141 original size:12 final size:12
Alignment explanation
Indices: 8551116--8551166 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
8551106 TATTTCAAAT
*
8551116 TTAGATATTATTA
1 TTAGTTATT-TTA
8551129 TTA-TTATTGTTA
1 TTAGTTATT-TTA
*
8551141 TTAGTCATTTTA
1 TTAGTTATTTTA
8551153 TTAGTTATTTTA
1 TTAGTTATTTTA
8551165 TT
1 TT
8551167 TTATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (12 bp):
TTAGTTATTTTA
Found at i:8554693 original size:49 final size:49
Alignment explanation
Indices: 8554586--8554902 Score: 273
Period size: 49 Copynumber: 6.7 Consensus size: 49
8554576 GGTACGATAT
* * * * * *
8554586 CGATGCCATGTTCCAAACATGGTCTTACACT-G-GCTCACATATCTAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATCGAAGC
* *
8554634 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
* * * ** *
8554683 CGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
** * * *
8554732 CGATGCCATGTCCCAGACAGGTCTT-C-C-A-CTGACACATGTC-AAGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
* *
8554776 CGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TGCATATCTC-AAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATCGAA-GC
* * * *
8554825 TGATG-CATGTCTCAGACATGTCTTACACTAGCTCTCATA-AT-GTAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
* *
8554871 CGATG-CATGTCCCACACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGC
8554903 ACACATATCA
Statistics
Matches: 220, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
44 27 0.12
45 8 0.04
46 32 0.15
47 14 0.06
48 57 0.26
49 82 0.37
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
Found at i:8554830 original size:93 final size:93
Alignment explanation
Indices: 8554585--8554853 Score: 262
Period size: 93 Copynumber: 2.8 Consensus size: 93
8554575 GGGTACGATA
* * * *
8554585 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCT-AAGTC-GATGCCATGTCCC
1 TCGATGCCATGTCCCAGACA-GGTCTTACACTGGCT-TCATATCTCAAGGCTGATGCCATGTCCC
** *
8554648 AGACAGGTCTTACACTAACTTTCATATATCGAAG
64 AGACAGGTCTT-C-C--ACTGACACATATCGAAG
* * * * *
8554682 CCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATC--GGTGTCGATGCCATGTCC
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TCATATCTCAAGG-CT-GATGCCATGTCC
*
8554745 CAGACAGGTCTTCCACTGACACATGTC-AAG
63 CAGACAGGTCTTCCACTGACACATATCGAAG
*
8554775 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCATATCTCAAGGCTGATG-CATGTCTCA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTT-CATATCTCAAGGCTGATGCCATGTCCCA
* *
8554839 GACATGTCTTACACT
65 GACAGGTCTTCCACT
8554854 AGCTCTCATA
Statistics
Matches: 144, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
92 22 0.15
93 46 0.32
94 10 0.07
95 3 0.02
96 22 0.15
97 17 0.12
98 24 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTCATATCTCAAGGCTGATGCCATGTCCCAG
ACAGGTCTTCCACTGACACATATCGAAG
Found at i:8555587 original size:20 final size:20
Alignment explanation
Indices: 8555562--8555600 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8555552 AAAATTTCAA
8555562 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
8555582 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
8555601 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:8560727 original size:10 final size:9
Alignment explanation
Indices: 8560701--8560726 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8560691 ACTTCACTTG
8560701 AAAAAAAAT
1 AAAAAAAAT
8560710 AAAAAAAAT
1 AAAAAAAAT
8560719 AAAAAAAA
1 AAAAAAAA
8560727 AGGAGAGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:8561581 original size:49 final size:50
Alignment explanation
Indices: 8561501--8561697 Score: 243
Period size: 50 Copynumber: 3.9 Consensus size: 50
8561491 ACCTATTGTG
*
8561501 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
8561551 -GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
8561601 CGATCACGTGTGTGGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
8561651 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
8561698 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 41 0.34
50 44 0.36
51 36 0.30
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:8561715 original size:101 final size:100
Alignment explanation
Indices: 8561510--8561697 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 100
8561500 GAGGTCACGT
* * * *
8561510 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTTCTAAGTGC
1 GTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGC
* **
8561575 AGGCTACTATGCGTACCCGATAACTTCGATCACGT
66 AGGCTACTATGCGTACCAGATAACTTCGATCACAA
* ** *
8561610 GTGTGGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTG
1 GTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAGTG
8561675 CAGGCTACTATGCGTACCAGATA
65 CAGGCTACTATGCGTACCAGATA
8561698 GCTTTGGCTA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 36 0.46
101 42 0.54
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
GTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGC
AGGCTACTATGCGTACCAGATAACTTCGATCACAA
Found at i:8561727 original size:101 final size:100
Alignment explanation
Indices: 8561519--8561730 Score: 246
Period size: 101 Copynumber: 2.1 Consensus size: 100
8561509 TGTGTAGTAC
* * *
8561519 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTTCTAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
* ** ** *
8561584 TGCGTACCCGATAACTTCGATCACGTGTGTGGTAC
66 TGCGTACCAGATAACTTCGATCACAAGTGTGAAAA
* ** *
8561619 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACT
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAGTGCAGGCTACT
* * *
8561684 ATGCGTACCAGATAGCTTTG-GCTACAAGTGTGAAAA
65 ATGCGTACCAGATAACTTCGATC-ACAAGTGTGAAAA
*
8561720 TATGTGCAGGC
1 TAAGTGCAGGC
8561731 AACTGAGTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
100 29 0.31
101 64 0.69
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCAGATAACTTCGATCACAAGTGTGAAAA
Found at i:8565927 original size:44 final size:44
Alignment explanation
Indices: 8565859--8566760 Score: 428
Period size: 44 Copynumber: 19.7 Consensus size: 44
8565849 GTCATCATGG
* * *
8565859 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * * *
8565903 CAAATCTTATATCCCTAAAATTGCAATAGAGTAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
** * * * * *
8565947 GCAAATCTTATCTTTCTAAAATTGTAGTAGAGCAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * * * * *
8565992 TAAACCTTATCTCCTTGAAATTACAGTGTAACA-AGTCGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTA
* * * *
8566036 CAAGTCTTATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
8566080 GCGAAA-CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTA
1 -C-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C----TA
* * *
8566132 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * **
8566176 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGTAAATTTAAAATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
8566220 GCAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
8566265 CAAATCTTATATCTCTAAAGTTGTAGTGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
8566309 CTAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAACGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * * * * *
8566353 TAAGTCCTATAC-CACTAAAGTTGCAGTAGG-TCGGATTAAATCTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA
* * **
8566397 CCATAGCAAGTCTTATCTCCCTGAAGCTGCAGTGGAATAGACTAAAGCTACAAGCTA
1 -C--A--AA-TCTTATCTCCCTGAAGTTGCAGTGG---AG-C---AGATTGAAGCTA
* *
8566454 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
** * * * * *
8566498 TTAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * ** * *
8566542 CAAGTTATGAGTCTTATTTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAAGTTA
1 C-A---A--A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGCTA
* * * ** * * *
8566600 CAAATCTTATCTCCTTAAAGTTGTAGTGGAATAGGTTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * * *
8566644 CAAACCTTATTTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
8566688 CAAATATTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
**
8566732 CAAATCTTATAC-CTTTGAAGTTGCAGTGG
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGG
8566761 GTTGGAATGA
Statistics
Matches: 652, Mismatches: 160, Indels: 92
0.72 0.18 0.10
Matches are distributed among these distances:
43 1 0.00
44 375 0.58
45 107 0.16
46 2 0.00
47 2 0.00
48 4 0.01
49 4 0.01
50 21 0.03
51 113 0.17
52 5 0.01
54 3 0.00
56 1 0.00
57 8 0.01
58 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
Found at i:8566541 original size:95 final size:95
Alignment explanation
Indices: 8566407--8566578 Score: 236
Period size: 95 Copynumber: 1.8 Consensus size: 95
8566397 CCATAGCAAG
* * *
8566407 TCTTATCTCCCTGAAGCTGCAGTGGAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCCTGA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGACTAAAGCTACAAGCTACAAATCTTATCTCCCTAA
8566472 AGTTGCAGTGGAGCAGATTGAAGATGTTAA
66 AGTTGCAGTGGAGCAGATTGAAGATGTTAA
* * * * * ** * *
8566502 TCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATGAGTCTTATTTCCCTAA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGACTAAAGCTACAAGCTACAAATCTTATCTCCCTAA
8566567 AGTTGCAGTGGA
66 AGTTGCAGTGGA
8566579 ATAAATTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
95 65 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (95 bp):
TCTTATCTCCCTAAAGCTGCAGTGGAACAGACTAAAGCTACAAGCTACAAATCTTATCTCCCTAA
AGTTGCAGTGGAGCAGATTGAAGATGTTAA
Found at i:8569477 original size:24 final size:24
Alignment explanation
Indices: 8569449--8569504 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
8569439 GCCATACGGG
* *
8569449 CGTGTTGTCGCCCGTGTGGTAAGT
1 CGTGTGGTCGCCCATGTGGTAAGT
*
8569473 CGTGTGGTCGCCCATGTGGTAGGT
1 CGTGTGGTCGCCCATGTGGTAAGT
8569497 CGTGTGGT
1 CGTGTGGT
8569505 AGTACACGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.20, G:0.41, T:0.32
Consensus pattern (24 bp):
CGTGTGGTCGCCCATGTGGTAAGT
Found at i:8577246 original size:53 final size:53
Alignment explanation
Indices: 8577166--8577266 Score: 202
Period size: 53 Copynumber: 1.9 Consensus size: 53
8577156 GTACGAACTA
8577166 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTCATCAC
1 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTCATCAC
8577219 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTC
1 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTC
8577267 CTCTGTGATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.33
Consensus pattern (53 bp):
ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTCATCAC
Found at i:8577375 original size:28 final size:28
Alignment explanation
Indices: 8577335--8577388 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
8577325 TGGAAATAGG
8577335 TGTAAAACCACGAGGTTGAGACCCATAA
1 TGTAAAACCACGAGGTTGAGACCCATAA
8577363 TGTAAAACCACGAGGTTGAGACCCAT
1 TGTAAAACCACGAGGTTGAGACCCAT
8577389 GGGATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (28 bp):
TGTAAAACCACGAGGTTGAGACCCATAA
Found at i:8580277 original size:12 final size:12
Alignment explanation
Indices: 8580260--8580298 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8580250 ACTGAAGGAG
8580260 CTTAATTTTTCA
1 CTTAATTTTTCA
**
8580272 CTTAATTTTTTG
1 CTTAATTTTTCA
8580284 CTTAATTTTTCA
1 CTTAATTTTTCA
8580296 CTT
1 CTT
8580299 TTAGTTCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.62
Consensus pattern (12 bp):
CTTAATTTTTCA
Found at i:8587100 original size:21 final size:22
Alignment explanation
Indices: 8587061--8587106 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8587051 GTACTTTTTA
* *
8587061 TTTAATTTTCCTTTATTATTAT
1 TTTAATTTTACTTTATTATAAT
*
8587083 TTTAATTTTAGTTT-TTATAAT
1 TTTAATTTTACTTTATTATAAT
8587104 TTT
1 TTT
8587107 TATTGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTAATTTTACTTTATTATAAT
Found at i:8590363 original size:17 final size:18
Alignment explanation
Indices: 8590341--8590380 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8590331 ACTCTTACTC
*
8590341 TTTATTTATTTT-TCATG
1 TTTATTTATTTTATCAAG
*
8590358 TTTATTTCTTTTATCAAG
1 TTTATTTATTTTATCAAG
8590376 TTTAT
1 TTTAT
8590381 GTTGTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATTTATTTTATCAAG
Found at i:8594853 original size:138 final size:137
Alignment explanation
Indices: 8594630--8594895 Score: 406
Period size: 138 Copynumber: 1.9 Consensus size: 137
8594620 ACTTTCTGCC
** * * *
8594630 TATTCATTACAACATTATTTAGTGTGAAGTCATTTCACTAAAGTATCATGATTGAGCTCTCCATT
1 TATTCATTACAACATTATTTAGTACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCATT
* * * *
8594695 ATTATATCCTATCACAAAACTGCTTATCAACTTCTCATCCAATGACTTTGTAATTGTATTACCCT
66 ATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTATTACCCT
8594760 AATAGGA
131 AATAGGA
* *
8594767 TATTCATTACAATATTATTTAGTCACGAAGTTATTCCACTAAAATATCATGATTGAACTCTCCAT
1 TATTCATTACAACATTATTTAGT-ACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
* *
8594832 TATTATATACTATCACGAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTGTTACC
65 TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTATTACC
8594896 ATCATAGTAT
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
137 22 0.19
138 93 0.81
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (137 bp):
TATTCATTACAACATTATTTAGTACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCATT
ATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTATTACCCT
AATAGGA
Found at i:8595170 original size:17 final size:16
Alignment explanation
Indices: 8595138--8595188 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
8595128 ATTAACTTTT
8595138 TAAAAAATTTTAAAAA
1 TAAAAAATTTTAAAAA
*
8595154 TAAAAAATACTTTAAAAT
1 TAAAAAAT--TTTAAAAA
*
8595172 TATAAAAATTATAAAAA
1 TA-AAAAATTTTAAAAA
8595189 AACATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 9 0.31
19 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAAATTTTAAAAA
Found at i:8601320 original size:27 final size:27
Alignment explanation
Indices: 8601290--8601343 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8601280 AAACCCTAGG
8601290 AAAGAGAAAAACATTCAAGCAAGCTTT
1 AAAGAGAAAAACATTCAAGCAAGCTTT
8601317 AAAGAGAAAAACATTCAAGCAAGCTTT
1 AAAGAGAAAAACATTCAAGCAAGCTTT
8601344 CTTGGCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (27 bp):
AAAGAGAAAAACATTCAAGCAAGCTTT
Found at i:8601794 original size:21 final size:21
Alignment explanation
Indices: 8601770--8601809 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8601760 ACCTAAGATG
* *
8601770 TAAATTGAATTCAATTGAGTA
1 TAAAGTGAATTAAATTGAGTA
8601791 TAAAGTGAATTAAATTGAG
1 TAAAGTGAATTAAATTGAG
8601810 GCTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (21 bp):
TAAAGTGAATTAAATTGAGTA
Found at i:8601815 original size:21 final size:21
Alignment explanation
Indices: 8601770--8601815 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8601760 ACCTAAGATG
* * *
8601770 TAAATTGAATTCAATTGAGTA
1 TAAAGTGAATTAAATTGAGGA
*
8601791 TAAAGTGAATTAAATTGAGGC
1 TAAAGTGAATTAAATTGAGGA
8601812 TAAA
1 TAAA
8601816 TTCATTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (21 bp):
TAAAGTGAATTAAATTGAGGA
Found at i:8619593 original size:19 final size:19
Alignment explanation
Indices: 8619569--8619606 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8619559 TCCCAACTAC
8619569 CTCGAAAATCAATAATACA
1 CTCGAAAATCAATAATACA
8619588 CTCGAAAATCAATAATACA
1 CTCGAAAATCAATAATACA
8619607 ACTTCTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (19 bp):
CTCGAAAATCAATAATACA
Found at i:8629644 original size:14 final size:14
Alignment explanation
Indices: 8629625--8629655 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8629615 CTGGCTAGCA
*
8629625 CCTATGCCCGAAGC
1 CCTATGCCCAAAGC
8629639 CCTATGCCCAAAGC
1 CCTATGCCCAAAGC
8629653 CCT
1 CCT
8629656 CTATCCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (14 bp):
CCTATGCCCAAAGC
Found at i:8631070 original size:14 final size:16
Alignment explanation
Indices: 8631041--8631072 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
8631031 AGAATGTTTA
8631041 AATTCATTTAAAAACC
1 AATTCATTTAAAAACC
8631057 AATTC-TTT-AAAACC
1 AATTCATTTAAAAACC
8631071 AA
1 AA
8631073 AATTGAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTCATTTAAAAACC
Found at i:8634462 original size:38 final size:38
Alignment explanation
Indices: 8634410--8634584 Score: 174
Period size: 38 Copynumber: 4.6 Consensus size: 38
8634400 AATTTTCAAT
* **
8634410 ACACCGGCATAAAGCCTGCTAGGCACGGAGCCCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
** * *
8634448 ACACCGAAACAAAGCCTGCTAGACACATAGCCCAAATA
1 ACACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
* * * *
8634486 TCACCGGCACAAAGCCTGC-AAGAAAATAGCCCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
* * *
8634523 TCACTGGCACAAAGCCTGCTAGGCACA-AGGCTCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACATA-GCCCGAATA
* * *
8634561 ACACCGGTATAATGCCTGCTAGGC
1 ACACCGGCACAAAGCCTGCTAGGC
8634585 TAAATAACAT
Statistics
Matches: 110, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
37 32 0.29
38 78 0.71
ACGTcount: A:0.35, C:0.30, G:0.21, T:0.13
Consensus pattern (38 bp):
ACACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
Found at i:8635215 original size:10 final size:10
Alignment explanation
Indices: 8635200--8635236 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
8635190 AAGGTACAGG
8635200 CTAGTTGGAC
1 CTAGTTGGAC
8635210 CTAGTTGGAC
1 CTAGTTGGAC
8635220 CTAGTTGGAC
1 CTAGTTGGAC
8635230 CTAGTTG
1 CTAGTTG
8635237 TAACGATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (10 bp):
CTAGTTGGAC
Found at i:8638293 original size:26 final size:23
Alignment explanation
Indices: 8638241--8638285 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
8638231 TAATATTTTA
*
8638241 TATTTTTATTTAAAAAATGATGT
1 TATTTTTATTTAAAAAATAATGT
8638264 TATTTTTATTTAAAAAATAATG
1 TATTTTTATTTAAAAAATAATG
8638286 GAATTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TATTTTTATTTAAAAAATAATGT
Found at i:8639707 original size:34 final size:34
Alignment explanation
Indices: 8639663--8639776 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 34
8639653 ATCAAATACA
* *
8639663 TGTTAAAAGCATGATTATTGCTACCGTATTGATT
1 TGTTATAAGCATGATTATTGCTACTGTATTGATT
* * * * * *
8639697 TGTTATAAGCATAATAATTGATACTATATCGACT
1 TGTTATAAGCATGATTATTGCTACTGTATTGATT
* *
8639731 TGTTATAAGCATG-TTATTGCTATTGTATTGATC
1 TGTTATAAGCATGATTATTGCTACTGTATTGATT
* *
8639764 TATTGTAAGCATG
1 TGTTATAAGCATG
8639777 TCATGTTGCA
Statistics
Matches: 62, Mismatches: 18, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
33 24 0.39
34 38 0.61
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTTATAAGCATGATTATTGCTACTGTATTGATT
Found at i:8639882 original size:48 final size:48
Alignment explanation
Indices: 8639820--8639994 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 48
8639810 AAGGAGGAAA
*
8639820 TAGTCGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
* * * * *
8639868 TAGTTGGCAATTTATCTACATGACCAGTGGTTCGTCCACAATGTATTT
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
* *
8639916 TAGTTGGTAGTTTGTC-G--TGCCCAGTGGTTCATCCACAACGTATTT
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
* * *
8639961 TAGTTAGTAGTTTATCTGCACGACCAGTAGTTCA
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCA
8639995 CCTATAATGT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
45 39 0.37
46 1 0.01
48 66 0.62
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (48 bp):
TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
Found at i:8646806 original size:40 final size:40
Alignment explanation
Indices: 8646740--8646818 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
8646730 ACACCCCATG
* *
8646740 TGGGGATAAAATCGACCTACCCAGCCCTACATACCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
* * *
8646780 TGGGGATAAAATTGACCCATCTAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
8646819 GGTACTGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
Found at i:8655405 original size:12 final size:12
Alignment explanation
Indices: 8655388--8655417 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8655378 ACGTGTGTTG
8655388 CACACGACCTAC
1 CACACGACCTAC
*
8655400 CACACGGCCTAC
1 CACACGACCTAC
8655412 CACACG
1 CACACG
8655418 CCTGTATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.50, G:0.13, T:0.07
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:8657055 original size:20 final size:20
Alignment explanation
Indices: 8657030--8657070 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8657020 CAATTAAATC
8657030 ATATAATATGAAATAGAATA
1 ATATAATATGAAATAGAATA
8657050 ATATAATATGAAATAGAATA
1 ATATAATATGAAATAGAATA
8657070 A
1 A
8657071 GGTAGGGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
ATATAATATGAAATAGAATA
Found at i:8659521 original size:21 final size:21
Alignment explanation
Indices: 8659497--8659540 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8659487 CATTGCAAAA
8659497 TTTGGTTGCTAATGCCCATTT
1 TTTGGTTGCTAATGCCCATTT
8659518 TTTGGTTGCTAATGCCCATTT
1 TTTGGTTGCTAATGCCCATTT
8659539 TT
1 TT
8659541 CCAACTCGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (21 bp):
TTTGGTTGCTAATGCCCATTT
Found at i:8660654 original size:33 final size:33
Alignment explanation
Indices: 8660602--8660684 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
8660592 GTAATGCAAC
* * *
8660602 ATAACATGCTTACAACAAATCAATACGGTAGCA
1 ATAACATGCTTATAACAAATCAATACAGTAACA
* **
8660635 ATAACATGCTTATAGCAAATTGATACAGTAACA
1 ATAACATGCTTATAACAAATCAATACAGTAACA
*
8660668 ATTATCATGCTTATAAC
1 A-TAACATGCTTATAAC
8660685 GGATCATCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (33 bp):
ATAACATGCTTATAACAAATCAATACAGTAACA
Found at i:8662177 original size:39 final size:39
Alignment explanation
Indices: 8662123--8662197 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
8662113 ATATCAAATA
* *
8662123 TAGGATTATGGTAGACCCATCTATCC-ACTACACACCAAT
1 TAGGATTATGATAGACCCATCCATCCAAC-ACACACCAAT
* *
8662162 TAGGGTTATGATAGACCTATCCATCCAACACACACC
1 TAGGATTATGATAGACCCATCCATCCAACACACACC
8662198 TAATAAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 29 0.94
40 2 0.06
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (39 bp):
TAGGATTATGATAGACCCATCCATCCAACACACACCAAT
Found at i:8666479 original size:24 final size:24
Alignment explanation
Indices: 8666443--8666512 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
8666433 GGGTCAACAT
*
8666443 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
8666467 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
8666491 TGGCACTATGTGTGCTGATTTG
1 TGGCACTATGTGTGCGGATTTG
8666513 GATGTCAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:8667048 original size:26 final size:26
Alignment explanation
Indices: 8667017--8667067 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
8667007 CCAGTTTTTA
*
8667017 ACATTTTGTTACCCTCTTCTTAGTTC
1 ACATTTTGGTACCCTCTTCTTAGTTC
8667043 ACATTTTGGTACCCTCTTCTTAGTT
1 ACATTTTGGTACCCTCTTCTTAGTT
8667068 GATCTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.25, G:0.10, T:0.49
Consensus pattern (26 bp):
ACATTTTGGTACCCTCTTCTTAGTTC
Found at i:8678941 original size:40 final size:40
Alignment explanation
Indices: 8678738--8678941 Score: 193
Period size: 40 Copynumber: 5.1 Consensus size: 40
8678728 TGGAATTTAA
** *
8678738 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
8678778 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
8678818 CCAGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
8678857 CC-GAAATTAGTATCTCGCACAAATACCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
8678897 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
8678937 CCGGA
1 CCGGA
8678942 CATCATTCAA
Statistics
Matches: 132, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
38 4 0.03
39 28 0.21
40 86 0.65
41 14 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:8681064 original size:4 final size:4
Alignment explanation
Indices: 8681055--8681081 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8681045 TCGATGGTAA
8681055 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
8681082 AATATTCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:8681801 original size:85 final size:85
Alignment explanation
Indices: 8681658--8682114 Score: 914
Period size: 85 Copynumber: 5.4 Consensus size: 85
8681648 AGAATTAAGG
8681658 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
1 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
8681723 ATTTTTCTGCATTCTCATCA
66 ATTTTTCTGCATTCTCATCA
8681743 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
1 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
8681808 ATTTTTCTGCATTCTCATCA
66 ATTTTTCTGCATTCTCATCA
8681828 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
1 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
8681893 ATTTTTCTGCATTCTCATCA
66 ATTTTTCTGCATTCTCATCA
8681913 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
1 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
8681978 ATTTTTCTGCATTCTCATCA
66 ATTTTTCTGCATTCTCATCA
8681998 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
1 GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
8682063 ATTTTTCTGCATTCTCATCA
66 ATTTTTCTGCATTCTCATCA
8682083 GCAAAAACACCATGGAAGAGTTCCCTTAAGCT
1 GCAAAAACACCATGGAAGAGTTCCCTTAAGCT
8682115 GGTTTTTCAT
Statistics
Matches: 372, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 372 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (85 bp):
GCAAAAACACCATGGAAGAGTTCCCTTAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTT
ATTTTTCTGCATTCTCATCA
Found at i:8683610 original size:50 final size:51
Alignment explanation
Indices: 8683531--8683659 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
8683521 GACCATGGCA
8683531 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
8683582 A-AAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
8683632 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
8683660 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:8683673 original size:31 final size:31
Alignment explanation
Indices: 8683635--8683776 Score: 214
Period size: 31 Copynumber: 4.6 Consensus size: 31
8683625 ACAAATGACA
8683635 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
8683666 AGTGAAAAGTGGTAG-TTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-AGCTACCTGATC
*
8683697 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
8683728 AGTGAAAAATGGTAGCTCCAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
8683759 AGTGAATAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
8683777 TGGCTATAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 3 0.03
31 95 0.94
32 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:8683919 original size:42 final size:43
Alignment explanation
Indices: 8683855--8683969 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
8683845 TATGTAATTC
* * * *
8683855 GTGTAGGACCATAGCTGCGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGATGAGCTATGGCATCGATTATATGAAGAT
* * *
8683897 GTGTAAGACCATAGATGGGCTATGTCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGATGAGCTATGGCATCGATTATATGAAGAT
* *
8683939 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGATGAGCTATGGCATCGA
8683970 GAAAGTGAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGATGAGCTATGGCATCGATTATATGAAGAT
Found at i:8684994 original size:18 final size:18
Alignment explanation
Indices: 8684956--8684996 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8684946 GATGTTAATA
** *
8684956 TAGGAGTAAATCTTTGGT
1 TAGGAGTAAATCCATGAT
8684974 TAGGAGTAAATCCATGAT
1 TAGGAGTAAATCCATGAT
8684992 TAGGA
1 TAGGA
8684997 TTTATCTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (18 bp):
TAGGAGTAAATCCATGAT
Found at i:8690565 original size:16 final size:15
Alignment explanation
Indices: 8690541--8690570 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8690531 AACTGTTTTA
8690541 TTACAAATTTCACTC
1 TTACAAATTTCACTC
8690556 TTACATAATTTCACT
1 TTACA-AATTTCACT
8690571 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:8690898 original size:50 final size:50
Alignment explanation
Indices: 8690770--8691059 Score: 276
Period size: 50 Copynumber: 5.8 Consensus size: 50
8690760 AATCGAAGCT
* * * * **
8690770 ATCTGGTACGCACAGTAGCCTGCACTTAGTACTACACATGTGACC-AATA
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAACC
**
8690819 ATCTGGTACACATAGTAGCCTGTACTTAGTACTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAACC
* * * * * * *
8690869 ATCTGATACACGTAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGTC
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAA-CC
* * ** * ** *
8690920 GTCGGGTATGCATAGTAGCCTACACTTAGTACTACACATGCAACCTAACT
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAACC
* * *
8690970 ATCTGGTACACGTAGTAGCCTACAGTTAGTACTACACACGTAACCTACAACC
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCT--AACC
*** *
8691022 ATCTTAAACACATAGTAGCCTACACATAGTACTACACA
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACA
8691060 TGTGTTCTCA
Statistics
Matches: 194, Mismatches: 43, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 41 0.21
50 82 0.42
51 36 0.19
52 35 0.18
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAACC
Found at i:8690966 original size:101 final size:99
Alignment explanation
Indices: 8690783--8691059 Score: 295
Period size: 101 Copynumber: 2.7 Consensus size: 99
8690773 TGGTACGCAC
* * * **
8690783 AGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACATAGTAGCCTGTACTTAG
1 AGTAGCCTGCAGTTAGTACTACACACGTGACCAATAATCGGGTACACATAGTAGCCTACACTTAG
**
8690848 TACTACACACGTGACCTAACCATCTGATACACGT
66 TACTACACACGCAACCTAACCATCTGATACACGT
* ** **
8690882 AGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGTCGTCGGGTATGCATAGTAGCCTACACTT
1 AGTAGCCTGCAGTTAGTACTACACACGTGA-CCAA-TAATCGGGTACACATAGTAGCCTACACTT
* * *
8690947 AGTACTACACATGCAACCTAACTATCTGGTACACGT
64 AGTACTACACACGCAACCTAACCATCTGATACACGT
* * ****
8690983 AGTAGCCTACAGTTAGTACTACACACGTAACCTACA-ACCATCTTAAACACATAGTAGCCTACAC
1 AGTAGCCTGCAGTTAGTACTACACACGTGACC-A-ATA--ATCGGGTACACATAGTAGCCTACAC
*
8691047 ATAGTACTACACA
62 TTAGTACTACACA
8691060 TGTGTTCTCA
Statistics
Matches: 145, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
99 28 0.19
100 4 0.03
101 82 0.57
102 31 0.21
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (99 bp):
AGTAGCCTGCAGTTAGTACTACACACGTGACCAATAATCGGGTACACATAGTAGCCTACACTTAG
TACTACACACGCAACCTAACCATCTGATACACGT
Found at i:8691016 original size:151 final size:151
Alignment explanation
Indices: 8690774--8691059 Score: 387
Period size: 151 Copynumber: 1.9 Consensus size: 151
8690764 GAAGCTATCT
* **
8690774 GGTACGCACAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACATAGTAGCC
1 GGTACGCACAGTAGCCTACACTTAGTACTACACATGCAACCAATAATCTGGTACACATAGTAGCC
** * * * * **
8690839 TGTACTTAGTACTACACACGTGACCT-AACCATCTGATACACGTAGTAGCCTGCAGTTAGTACTA
66 TACACTTAGTACTACACACGTAACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
8690903 CACACGTGATCGAAGTCGTCG
131 CACACGTGATCGAAGTCGTCG
* * *
8690924 GGTATGCATAGTAGCCTACACTTAGTACTACACATGCAACCTAACT-ATCTGGTACACGTAGTAG
1 GGTACGCACAGTAGCCTACACTTAGTACTACACATGCAACC-AA-TAATCTGGTACACATAGTAG
* *
8690988 CCTACAGTTAGTACTACACACGTAACCTACAACCATCTTAAACACATAGTAGCCTACACATAGTA
64 CCTACACTTAGTACTACACACGTAACCTA-AACCATCTGAAACACATAGTAGCCTACACATAGTA
8691053 CTACACA
128 CTACACA
8691060 TGTGTTCTCA
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
150 36 0.31
151 43 0.37
152 1 0.01
153 36 0.31
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (151 bp):
GGTACGCACAGTAGCCTACACTTAGTACTACACATGCAACCAATAATCTGGTACACATAGTAGCC
TACACTTAGTACTACACACGTAACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
CACACGTGATCGAAGTCGTCG
Found at i:8695283 original size:100 final size:100
Alignment explanation
Indices: 8695110--8695305 Score: 320
Period size: 100 Copynumber: 2.0 Consensus size: 100
8695100 TTGATAAAAT
* * * *
8695110 TTATAAACTTTACCTTGTCCCTCTTTTGTTTATCCTCTAGTCATGTCGGGAACGATACATTCGTT
1 TTATAAACTCTACCTTGTCCCTCTTTTATTTACCCTCTAGTCATGTCAGGAACGATACATTCGTT
8695175 GTGATCAGTCTTGCTATTACCAGATCAGACACCGA
66 GTGATCAGTCTTGCTATTACCAGATCAGACACCGA
* * *
8695210 TTATAAACTCTACCTTGTCCCTCTTTTATTTACCCTCTAGTCGTGTCAGGAATGGTACATTCGTT
1 TTATAAACTCTACCTTGTCCCTCTTTTATTTACCCTCTAGTCATGTCAGGAACGATACATTCGTT
*
8695275 GTGATCAGTCTTTCTATTACCAGATCAGACA
66 GTGATCAGTCTTGCTATTACCAGATCAGACA
8695306 TTGGTTCAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (100 bp):
TTATAAACTCTACCTTGTCCCTCTTTTATTTACCCTCTAGTCATGTCAGGAACGATACATTCGTT
GTGATCAGTCTTGCTATTACCAGATCAGACACCGA
Found at i:8697008 original size:37 final size:37
Alignment explanation
Indices: 8696947--8697025 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
8696937 TTATTACGAA
* *
8696947 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
* *
8696984 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
8697021 GTCTT
1 GTCTT
8697026 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:8700990 original size:6 final size:6
Alignment explanation
Indices: 8700979--8701009 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8700969 AATTACCTGA
8700979 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT A
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT A
8701010 ATTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:8701388 original size:13 final size:13
Alignment explanation
Indices: 8701370--8701406 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
8701360 TAATTGAGAT
8701370 AAAATAAATAAGA
1 AAAATAAATAAGA
8701383 AAAATAAATAAG-
1 AAAATAAATAAGA
8701395 AAAATAAA-AAGA
1 AAAATAAATAAGA
8701407 TGATTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.13
12 8 0.35
13 12 0.52
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (13 bp):
AAAATAAATAAGA
Found at i:8726932 original size:55 final size:53
Alignment explanation
Indices: 8726850--8727083 Score: 239
Period size: 55 Copynumber: 4.4 Consensus size: 53
8726840 GTTAGGGTTT
8726850 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
8726905 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
8726960 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
8727013 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-CA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
*
8727062 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
8727084 ACCAGTCATG
Statistics
Matches: 151, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 21 0.14
52 6 0.04
53 40 0.26
54 12 0.08
55 68 0.45
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:8727033 original size:53 final size:53
Alignment explanation
Indices: 8726850--8727057 Score: 258
Period size: 55 Copynumber: 3.8 Consensus size: 53
8726840 GTTAGGGTTT
*
8726850 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * *
8726905 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
8726960 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
8727013 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
8727058 TCCAAAGGAT
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
52 6 0.05
53 44 0.34
54 8 0.06
55 69 0.53
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:8727056 original size:108 final size:110
Alignment explanation
Indices: 8726857--8727057 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
8726847 TTTAAGGATA
*
8726857 CCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
8726922 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
8726967 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
8727029 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
8727058 TCCAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:8727207 original size:23 final size:24
Alignment explanation
Indices: 8727170--8727214 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8727160 AAGGTAAGGT
*
8727170 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
*
8727193 AAGGTAAGATAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
8727215 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:8758502 original size:52 final size:53
Alignment explanation
Indices: 8758409--8758519 Score: 206
Period size: 52 Copynumber: 2.1 Consensus size: 53
8758399 CAATTAAGTG
*
8758409 ATTTAGATGATTATTTTTTATGGTTTTTGTACTTTTGGGACCTTTATAGCTTA
1 ATTTAGATGATTATTTTTTATGGTTTTTGTACTTTTAGGACCTTTATAGCTTA
8758462 ATTTAGATGATTATTTTTTATGG-TTTTGTACTTTTAGGACCTTTATAGCTTA
1 ATTTAGATGATTATTTTTTATGGTTTTTGTACTTTTAGGACCTTTATAGCTTA
8758514 ATTTAG
1 ATTTAG
8758520 CTAATGAGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 34 0.60
53 23 0.40
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.54
Consensus pattern (53 bp):
ATTTAGATGATTATTTTTTATGGTTTTTGTACTTTTAGGACCTTTATAGCTTA
Found at i:8766850 original size:46 final size:47
Alignment explanation
Indices: 8766697--8766920 Score: 196
Period size: 46 Copynumber: 4.7 Consensus size: 47
8766687 ACTATTGTGC
8766697 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAG-T-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CAC--T-CGAGATGTAA
* * * *
8766746 GCTAGTGTAAGACCATGTCCGGGACATGGCATCGGCAGT-GAGACG-AGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACTCGAGATGTA-A
*
8766794 GCTAGTGTAAGACACGTCTGGGACATGCATCAGC-CTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACTCGAGATGTAA
* * * *
8766840 GCCAGTGTAAGACATGTCTAGGACATGCATC-G-GCTACGA-CT-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACT-CGAGATGTAA
**
8766884 GCTAGTGTAAGACCATGTCCAGGACATGGCATCAGCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA
8766921 TCCTATCCCA
Statistics
Matches: 146, Mismatches: 16, Indels: 27
0.77 0.08 0.14
Matches are distributed among these distances:
44 14 0.10
45 18 0.12
46 52 0.36
47 15 0.10
48 14 0.10
49 12 0.08
50 15 0.10
51 6 0.04
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACTCGAGATGTAA
Found at i:8768405 original size:29 final size:29
Alignment explanation
Indices: 8768349--8768405 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
8768339 ACACATATAA
* * * *
8768349 ATTTGAAAGAAAATGTATATATATAATAG
1 ATTTAAAAGAAAATATATACATAAAATAG
*
8768378 ATTTAAAAGAAAATATTTACATAAAATA
1 ATTTAAAAGAAAATATATACATAAAATA
8768406 ATATGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (29 bp):
ATTTAAAAGAAAATATATACATAAAATAG
Found at i:8771710 original size:40 final size:40
Alignment explanation
Indices: 8771666--8771929 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
8771656 GCTCCTCGTT
* *
8771666 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
8771706 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
8771746 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
8771786 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
8771826 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
8771865 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
8771906 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
8771930 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:8780503 original size:40 final size:40
Alignment explanation
Indices: 8780459--8780720 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
8780449 GCTCCTCGTT
* *
8780459 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
8780499 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
8780539 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
8780578 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
8780617 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
8780656 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
8780697 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
8780721 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:8782633 original size:177 final size:177
Alignment explanation
Indices: 8782331--8782983 Score: 713
Period size: 177 Copynumber: 3.7 Consensus size: 177
8782321 CCACCGTCTT
* * *
8782331 CAACCCGCTCTCTTGCTACCTCAGAGAGATAAGGCTCATGGCTAAAATCTGCTCCATTGTCGATA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGCCGATA
*
8782396 CATGGAGATAAGATTCGCCATCTTCGATCTACTCCTCTACTACTTAGGGAGATAAGATCTTCAAT
66 CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTTCAAT
* * *
8782461 CTTCAATCTACTTCCTTGCTACCTCAGGAAGATAAGACCACCATCGC
131 CTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACCACCATAGC
**
8782508 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCTGTTGCCGATA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGCCGATA
* * *
8782573 CATGGAGATAAGATTCGCCATCTTTGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTTCAAT
66 CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTTCAAT
* * * **** **
8782638 CTTCAGTTTGCTTCCTTGTTACTTCAGGAAGATAAGACTTGTATATT
131 CTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACCACCATAGC
* * * * * *
8782685 GAGCCTGCTC-CACTGC-ACCTTCA-AGGAGGTAAGGCTGGTGGCTAAAATCTACTCCATTGCCG
1 CAACCTGCTCTC-TTGCTACC-TCAGA-GAGATAAGGCTGATGGCTAAAATCTGCTCCATTGCCG
* * * *
8782747 ATACATGGAGAAAAGATTCTCCATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATCTTC
63 ATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTTC
* **** **
8782812 AATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTGTATATT
128 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACCACCATAGC
* * * * * * * * * * *
8782862 GAGCCTACTC-CATTGCAACTTCAGGGAGATAAGGCT-AGTGACTTAAATCTACTCCATTACTGA
1 CAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTGA-TGGCTAAAATCTGCTCCATTGCCGA
* * * * * ** *
8782925 TACATGGAGATAAGATTTGTCGTCTTTGGTCTGTTCCACTACTGCTTAGGGAGATAAGA
64 TACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGA
8782984 CCTGTCACTT
Statistics
Matches: 411, Mismatches: 59, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
176 5 0.01
177 404 0.98
178 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (177 bp):
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGCCGATA
CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTTCAAT
CTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACCACCATAGC
Found at i:8783053 original size:354 final size:354
Alignment explanation
Indices: 8782360--8783026 Score: 831
Period size: 354 Copynumber: 1.9 Consensus size: 354
8782350 CTCAGAGAGA
* * *
8782360 TAAGGCTCATGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATC
1 TAAGGCTCATGGCTAAAATCTACTCCATTGCCGATACATGGAGAAAAGATTCGCCATCTTCGATC
*
8782425 TACTCCTCTACTACTTAGGGAGATAAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTCAGGA
66 TACTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTCAGGA
* * * *
8782490 AGATAAGACCACCATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAA
131 AGATAAGACCACCATAGCCAACCTACTCTCTTGCAACCTCAGAGAGATAAGGCTGATGACTAAAA
* ** * *
8782555 TCTGCTCTGTTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTACTCCGCTACTGCTTAG
196 TCTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAG
* * * * **
8782620 GGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGTTACTTCAGGAAGATAAGACTTGTATATT
261 GGAGATAAGACCTTCAATCTTCAATATGCTTCCCTGCAACTTCAGGAAGATAAGACTTGTATATT
*
8782685 GAGCCTGCTCCACTGCACCTTCAAGGAGG
326 GAGCCTACTCCACTGCACCTTCAAGGAGG
** *
8782714 TAAGGCTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGAAAAGATTCTCCATCTTCGATC
1 TAAGGCTCATGGCTAAAATCTACTCCATTGCCGATACATGGAGAAAAGATTCGCCATCTTCGATC
* * * * *
8782779 TGCTCCACTACTACTTAGGGATATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGA
66 TACTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTCAGGA
**** *** * * * *
8782844 AGATAAGACTTGTATATTGAGCCTACTC-CATTGCAACTTCAGGGAGATAAGGCT-AGTGACTTA
131 AGATAAGACCACCATAGCCAACCTACTCTC-TTGCAACCTCAGAGAGATAAGGCTGA-TGACTAA
* * * * * **
8782907 AATCTACTCCATTACTGATACATGGAGATAAGATTTGTCGTCTTTGGTCTGTTCCACTACTGCTT
194 AATCTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTT
* *
8782972 AGGGAGATAAGACCTGTC-A-CTTCAATATGC-TCCACTGCAACTTTAGGGAGATAAG
259 AGGGAGATAAGACCT-TCAATCTTCAATATGCTTCC-CTGCAACTTCAGGAAGATAAG
8783027 GTTGGTAAGC
Statistics
Matches: 262, Mismatches: 47, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
352 3 0.01
353 27 0.10
354 230 0.88
355 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (354 bp):
TAAGGCTCATGGCTAAAATCTACTCCATTGCCGATACATGGAGAAAAGATTCGCCATCTTCGATC
TACTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTCAGGA
AGATAAGACCACCATAGCCAACCTACTCTCTTGCAACCTCAGAGAGATAAGGCTGATGACTAAAA
TCTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAG
GGAGATAAGACCTTCAATCTTCAATATGCTTCCCTGCAACTTCAGGAAGATAAGACTTGTATATT
GAGCCTACTCCACTGCACCTTCAAGGAGG
Found at i:8789571 original size:50 final size:49
Alignment explanation
Indices: 8789446--8789634 Score: 270
Period size: 50 Copynumber: 3.8 Consensus size: 49
8789436 TAGCCGAAGC
* * * *
8789446 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
8789495 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* *
8789545 CATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
8789596 TTTCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
8789635 TGCGACCTCA
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
49 42 0.33
50 45 0.36
51 38 0.30
52 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:8789633 original size:101 final size:99
Alignment explanation
Indices: 8789447--8789634 Score: 295
Period size: 101 Copynumber: 1.9 Consensus size: 99
8789437 AGCCGAAGCT
* *
8789447 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGTAGT
8789512 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * *
8789546 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCTGGTACGCGTA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCTGGTACACGTA
8789611 GTAGCCTGCACTTAGTACTACACA
64 GTAGCCTGCACTTAGTACTACACA
8789635 TGCGACCTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 39 0.49
100 1 0.01
101 40 0.50
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (99 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:8791838 original size:15 final size:15
Alignment explanation
Indices: 8791782--8791846 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
8791772 TAAGAATAAC
*
8791782 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
8791796 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
8791811 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
8791826 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
8791841 AAGAAA
1 AAGAAA
8791847 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:8791848 original size:30 final size:31
Alignment explanation
Indices: 8791782--8791850 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
8791772 TAAGAATAAC
*
8791782 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
8791812 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
8791841 AAGAAACCCA
1 AAGAAACCCA
8791851 AGATACGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:8802837 original size:37 final size:37
Alignment explanation
Indices: 8802787--8802861 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
8802777 CTAGTTCTAG
8802787 AATAACAATTCAATACTGACGCACTCATAATGAAAGT
1 AATAACAATTCAATACTGACGCACTCATAATGAAAGT
8802824 AATAACAATTCAATACTGACGCACTCATAATGAAAGT
1 AATAACAATTCAATACTGACGCACTCATAATGAAAGT
8802861 A
1 A
8802862 GCATGAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.24
Consensus pattern (37 bp):
AATAACAATTCAATACTGACGCACTCATAATGAAAGT
Found at i:8815843 original size:46 final size:45
Alignment explanation
Indices: 8815776--8815951 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
8815766 TATTTGGGCA
* *
8815776 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
8815822 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
8815869 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
8815915 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8815952 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.62
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:8815910 original size:93 final size:93
Alignment explanation
Indices: 8815772--8815944 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
8815762 AGGATATTTG
* * * *
8815772 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
8815837 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * *
8815865 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
8815930 TTGAGTCCGAGTTCG
66 TTGAGTCCAAGTTCG
8815945 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:8818907 original size:15 final size:15
Alignment explanation
Indices: 8818868--8818947 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
8818858 GTATCTTGGG
*
8818868 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
8818883 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
8818898 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
8818913 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
8818928 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
8818942 TTTCTT
1 TTTCTT
8818948 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:8818937 original size:30 final size:30
Alignment explanation
Indices: 8818859--8818946 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
8818849 CATAGTATCG
* * *
8818859 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
8818889 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
8818919 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
8818947 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:8820931 original size:46 final size:45
Alignment explanation
Indices: 8820864--8821039 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
8820854 TATTTGGGCA
* *
8820864 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
8820910 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
8820957 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
8821003 -CCTGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8821040 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 63 0.59
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:8821019 original size:93 final size:93
Alignment explanation
Indices: 8820860--8821032 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
8820850 AGGATATTTG
* * * *
8820860 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
8820925 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
8820953 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGA
*
8821017 GTTGAGTCTGAGTTCG
65 GTTGAGTCCGAGTTCG
8821033 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:8823735 original size:40 final size:40
Alignment explanation
Indices: 8823706--8823834 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
8823696 ACTAAGATCT
8823706 GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
* * *
8823746 GAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
* *
8823786 GAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTCCC
8823826 GAAGGCATT
1 GAAGGCATT
8823835 GTATGAGTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 79 0.99
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
Found at i:8823790 original size:80 final size:81
Alignment explanation
Indices: 8823651--8823831 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
8823641 TTGAATGCTG
* * *
8823651 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
8823715 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
8823731 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
8823792 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
8823811 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
8823832 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:8823855 original size:39 final size:38
Alignment explanation
Indices: 8823652--8823871 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
8823642 TGAATGCTGT
* * * * *
8823652 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * * *
8823692 CCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
8823732 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
8823772 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
8823811 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
8823851 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
8823872 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.22
40 108 0.72
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:8826092 original size:24 final size:23
Alignment explanation
Indices: 8826040--8826094 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
8826030 CAACCGAATT
* *
8826040 TGCACACATAGTGCTCGTCACAC
1 TGCACACATAGTGCTAGTCAAAC
8826063 TCGCACACATAGTGCCATAGT-AAAC
1 T-GCACACATAGTG-C-TAGTCAAAC
8826088 TGCACAC
1 TGCACAC
8826095 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 5 0.19
26 3 0.11
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (23 bp):
TGCACACATAGTGCTAGTCAAAC
Found at i:8838695 original size:2 final size:2
Alignment explanation
Indices: 8838688--8838738 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
8838678 TGGATTCATA
* * * *
8838688 AT AT AT AT AG AT AA AT AT AT AT AT AT AT AG AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8838730 AT AT AT AT A
1 AT AT AT AT A
8838739 AAGATACTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:8838713 original size:20 final size:20
Alignment explanation
Indices: 8838688--8838736 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
8838678 TGGATTCATA
8838688 ATATATATAGATAAATATAT
1 ATATATATAGATAAATATAT
8838708 ATATATATAGATAAATATAT
1 ATATATATAGATAAATATAT
8838728 ATATATATA
1 ATATATATA
8838737 TAAAGATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
ATATATATAGATAAATATAT
Found at i:8841100 original size:41 final size:40
Alignment explanation
Indices: 8841038--8841142 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 40
8841028 AGGTTTTTGC
* * * *
8841038 ACACGGGCTAGGACACAGGCGTGTCATGGTCGTGTGAAGG
1 ACACAGGCTAGGACACGGGCGTGTCATGGCCATGTGAAGG
8841078 ACACAGGCTAGGGACACGGGCGTGTCATGGCCATGTGAAGG
1 ACACAGGCTA-GGACACGGGCGTGTCATGGCCATGTGAAGG
8841119 ACACAGG-TCAGGACACGGGCGTGT
1 ACACAGGCT-AGGACACGGGCGTGT
8841143 GCCAGGCTGT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 24 0.41
41 35 0.59
ACGTcount: A:0.24, C:0.22, G:0.39, T:0.15
Consensus pattern (40 bp):
ACACAGGCTAGGACACGGGCGTGTCATGGCCATGTGAAGG
Found at i:8842658 original size:13 final size:13
Alignment explanation
Indices: 8842640--8842664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8842630 TGGCCGTGTA
8842640 ATGGACACGGGCC
1 ATGGACACGGGCC
8842653 ATGGACACGGGC
1 ATGGACACGGGC
8842665 TTGTGCCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.40, T:0.08
Consensus pattern (13 bp):
ATGGACACGGGCC
Done.